Briefly, you should read the help for duplicateCorrelation and the
lmFit man pages to see what limma is capable of when there is a block
structure across arrays.
On Wed, Mar 9, 2011 at 6:03 PM, Tim Triche, Jr. <tim.triche at gmail.com> wrote:
> I must be dense, because I can't seem to figure out how a person would use
> limma to fit a linear mixed model. Is this because doing so would involve
> trying to do a Cholesky decomposition on a huge-by-huge matrix, and likely
> lead to flames shooting out the sides of my computer?
>> Seems like a relatively straightforward thing to do but most challenging
> problems appear that way. Should I stick to trying lme4 for this purpose?
> It seems a shame not to regularize with eBayes.
>> --
> If people do not believe that mathematics is simple, it is only because they
> do not realize how complicated life is.
> John von Neumann<http://www-groups.dcs.st-and.ac.uk/~history/Biographies/Von_Neumann.html>
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